introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

7 rows where transcript_id = 21575215

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
116649774 GT-AG 0 1.000000099473604e-05 110 rna-XM_008941910.1 21575215 2 38451 38560 Merops nubicus 57421 ACG|GTAAATAAAC...AGCCTCTAAACT/AGTATTTTCAAA...TACAG|AAT 1 1 16.723
116649775 GT-AG 0 1.000000099473604e-05 600 rna-XM_008941910.1 21575215 3 37735 38334 Merops nubicus 57421 CTG|GTAAGATGTT...TCCTCTTTGATT/TCCTCTTTGATT...TGCAG|GGA 0 1 29.831
116649776 GT-AG 0 1.000000099473604e-05 1310 rna-XM_008941910.1 21575215 4 36263 37572 Merops nubicus 57421 CAG|GTAAGAAGTG...TAGGCTTTAATT/TAGGCTTTAATT...ATTAG|CTG 0 1 48.136
116649777 GT-AG 0 0.0002460305296347 673 rna-XM_008941910.1 21575215 5 35382 36054 Merops nubicus 57421 AAG|GTATGTTGTC...GCTGCCTGGAGA/TACACACTCAGT...TACAG|CTC 1 1 71.638
116649778 GT-AG 0 1.000000099473604e-05 1096 rna-XM_008941910.1 21575215 6 34197 35292 Merops nubicus 57421 CCA|GTAAGGGAAT...ATTGTTTTATTT/GATTGTTTTATT...CTTAG|ATC 0 1 81.695
116649779 GT-AG 0 1.4937391967490716e-05 396 rna-XM_008941910.1 21575215 7 33705 34100 Merops nubicus 57421 ACT|GTAAGTAATA...CTTCTCTTCTCT/TTGTTTGTTACT...TGCAG|TGT 0 1 92.542
116649780 GT-AG 0 1.743281163569955e-05 1222 rna-XM_008941910.1 21575215 1 38737 39958 Merops nubicus 57421 TAA|GTAAGTTGTA...TTTTTCTGCATT/TTTTTCTGCATT...TGCAG|AGC   0 11.525

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);